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Crystal Structure of Human UDP-glucoronic acid decarboxylase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 293 PEG3350, Zn (ac)2, pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.3 44.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46 α = 90 b = 45 β = 97 c = 85 γ = 90
Symmetry Space Group P 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2005-09-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.97950 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.2 42.37 91.3 93023
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.2 1.26 58.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.21 40 84968 84968 4473 84.92 0.13559 0.13559 0.13418 0.139 0.16203 0.1361 RANDOM 12.954
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.39 -0.07 0.22 -0.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.702 r_dihedral_angle_4_deg 14.234 r_dihedral_angle_3_deg 11.353 r_sphericity_free 7.81 r_scangle_it 6.62 r_dihedral_angle_1_deg 5.668 r_scbond_it 5.245 r_sphericity_bonded 4.29 r_mcangle_it 3.951 r_mcbond_it 3.841
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.702 r_dihedral_angle_4_deg 14.234 r_dihedral_angle_3_deg 11.353 r_sphericity_free 7.81 r_scangle_it 6.62 r_dihedral_angle_1_deg 5.668 r_scbond_it 5.245 r_sphericity_bonded 4.29 r_mcangle_it 3.951 r_mcbond_it 3.841 r_rigid_bond_restr 2.682 r_mcbond_other 2.356 r_angle_refined_deg 1.506 r_angle_other_deg 0.877 r_symmetry_vdw_refined 0.3 r_symmetry_hbond_refined 0.284 r_nbd_refined 0.214 r_symmetry_vdw_other 0.21 r_nbd_other 0.172 r_nbtor_refined 0.163 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.086 r_nbtor_other 0.076 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2439 Nucleic Acid Atoms Solvent Atoms 353 Heterogen Atoms 94
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling SHELXD phasing